genome.fa.s8.2.7.7.80.10.50.1000.178.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   

This is table  178  of  190  ( 22705 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51951138--51951200	31	2.0	31	81	9	74	23	12	15	47	1.80
51967115--51967209	45	2.2	42	88	7	136	64	4	5	26	1.33
51978848--51978941	29	3.1	27	66	28	73	55	9	0	35	1.33
51978866--51978951	16	5.4	16	65	20	56	55	9	0	34	1.32
51978860--51978954	20	4.7	20	65	30	58	54	10	0	34	1.35
51978816--51978970	63	2.4	63	96	1	283	56	10	0	33	1.33
51978816--51978992	63	2.8	62	92	5	270	54	10	0	34	1.35
51979303--51979380	27	2.9	27	86	3	104	16	29	25	28	1.97
51979428--51979498	27	2.5	29	88	8	103	49	1	9	39	1.45
51981818--51981863	23	2.0	23	100	0	92	39	8	0	52	1.33
51981915--51982015	27	3.7	27	81	2	105	23	24	31	19	1.98
51982099--51982138	11	3.7	11	86	6	64	70	0	30	0	0.88
51982162--51982200	19	2.0	21	85	10	55	23	0	10	66	1.22
51982246--51982280	3	11.3	3	87	6	52	31	0	5	62	1.18
51982279--51982319	3	13.7	3	94	0	73	0	2	29	68	1.03
51987761--51987808	25	1.9	25	100	0	96	56	2	8	33	1.41
51988851--51988897	3	15.7	3	79	16	53	36	2	0	61	1.08
51988852--51988897	18	2.5	19	86	6	60	36	2	0	60	1.09
51988857--51988902	15	3.0	15	87	9	58	36	2	0	60	1.09
51998874--51999654	389	2.0	390	96	0	1456	32	16	26	24	1.97
52000504--52001127	44	14.6	44	71	15	375	30	21	22	25	1.99
52000501--52000873	171	2.2	171	91	3	588	31	21	22	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52000882--52001201	40	7.6	40	66	16	137	27	21	21	28	1.99
52000849--52001213	83	4.3	83	67	15	244	27	21	22	28	1.99
52000672--52001238	127	4.4	127	92	1	895	30	21	21	26	1.98
52002468--52002529	3	20.7	3	80	12	74	33	1	0	64	1.03
52002564--52002594	2	15.5	2	93	0	53	48	3	0	48	1.17
52003818--52003847	16	1.9	15	93	6	51	26	0	3	70	1.03
52004425--52004545	4	30.0	4	75	18	101	0	28	0	71	0.87
52004401--52004543	44	3.3	43	77	16	154	0	27	0	72	0.90
52004359--52004546	83	2.3	79	83	13	233	0	28	0	70	0.91
52004365--52004543	37	5.0	36	74	16	131	0	28	0	70	0.91
52004585--52004655	28	2.6	27	89	8	108	15	29	28	26	1.96
52004585--52004664	28	2.9	27	85	3	106	15	31	27	26	1.95
52004719--52004765	24	2.0	24	95	0	85	53	0	8	38	1.32
52004837--52004899	31	2.1	30	90	3	99	60	9	3	26	1.43
52007129--52007163	16	2.1	17	89	5	54	31	2	0	65	1.07
52015368--52015412	20	2.4	18	86	13	65	24	4	4	66	1.29
52050562--52050618	18	3.2	19	78	12	66	29	0	0	70	0.88
52050787--52050819	17	1.9	17	100	0	66	42	6	21	30	1.77
52051275--52051320	19	2.4	19	92	0	74	45	8	15	30	1.76
52051376--52051414	18	2.2	18	86	4	53	33	17	10	38	1.84
52053769--52053807	13	2.9	13	88	3	51	28	5	0	66	1.12
52056158--52056297	40	3.5	40	76	6	142	26	18	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52062404--52062486	42	2.0	42	85	0	112	18	26	33	21	1.96
52065054--52065102	26	1.9	26	91	4	82	40	20	20	18	1.91
52066506--52066703	99	2.0	99	96	0	369	24	16	19	39	1.91
52068230--52068317	25	3.5	25	75	3	79	32	19	25	22	1.97
52068297--52068427	25	5.4	25	69	17	87	35	19	28	16	1.93
52068261--52068428	50	3.4	49	80	7	162	35	18	27	18	1.94
52076192--52076231	19	2.2	18	86	4	53	60	5	0	35	1.19
52085636--52085687	24	2.2	24	82	6	61	15	25	36	23	1.93
52095641--52095687	23	1.9	25	83	12	62	65	0	23	10	1.23
52095638--52095687	26	1.9	26	84	8	66	66	0	24	10	1.22
52098537--52098570	17	2.0	17	88	0	50	26	0	8	64	1.22
52098649--52098691	2	21.5	2	100	0	86	48	0	0	51	1.00
52105256--52105312	18	3.1	18	82	12	71	40	1	5	52	1.34
52108353--52108443	39	2.2	40	84	7	121	54	5	2	37	1.36
52109626--52109671	14	3.4	13	88	8	65	45	0	2	52	1.13
52118156--52118180	13	1.9	13	100	0	50	48	16	0	36	1.46
52118175--52118204	5	6.0	5	100	0	60	60	20	0	20	1.37
52118179--52118212	15	2.3	15	89	0	50	61	14	0	23	1.33
52123288--52123495	75	2.8	75	88	0	317	32	27	18	21	1.97
52141511--52141550	16	2.5	16	87	0	62	10	0	37	52	1.35
52141790--52141936	49	3.0	49	94	0	267	46	9	1	42	1.44
52144253--52144303	11	4.7	11	87	2	68	41	3	29	25	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52150029--52150064	6	5.8	6	87	6	54	66	0	2	30	1.06
52150025--52150071	19	2.5	18	77	16	51	61	0	2	36	1.08
52150080--52150117	18	2.1	19	85	5	51	39	7	7	44	1.63
52150157--52150204	24	2.0	24	84	8	62	41	0	2	56	1.11
52151503--52151564	21	3.0	21	81	4	74	41	17	24	16	1.89
52161114--52161150	9	4.1	9	92	0	65	45	13	10	29	1.77
52163184--52163219	14	2.4	15	90	9	56	41	5	0	52	1.24
52171281--52171305	5	5.0	5	100	0	50	0	0	60	40	0.97
52187651--52187703	21	2.5	21	78	0	61	33	35	5	24	1.79
52198609--52198646	18	2.2	18	85	4	51	55	2	0	42	1.14
52198604--52198658	27	2.1	26	83	10	67	52	5	0	41	1.24
52212704--52212792	42	2.1	42	85	4	117	42	19	23	14	1.88
52215133--52215157	5	5.0	5	100	0	50	0	80	0	20	0.72
52215257--52215316	30	2.0	31	86	3	86	20	40	0	40	1.52
52218614--52218645	14	2.1	16	88	11	50	56	3	0	40	1.15
52223910--52223940	3	10.7	3	93	6	55	0	29	0	70	0.87
52225557--52225615	18	3.4	18	79	15	70	40	0	5	54	1.23
52228866--52228937	21	3.4	21	86	0	99	29	8	27	34	1.86
52239334--52239379	22	2.1	22	95	0	83	45	8	21	23	1.80
52247684--52247797	31	3.8	30	70	17	92	47	9	18	24	1.78
52248871--52248978	9	12.4	9	82	11	127	23	9	25	42	1.83
52248900--52248978	41	1.9	41	94	0	140	21	11	25	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52249647--52249677	15	2.1	15	93	0	53	6	0	9	83	0.79
52250244--52250286	19	2.2	19	83	4	50	16	2	6	74	1.14
52250327--52250379	22	2.3	23	83	9	72	30	11	13	45	1.78
52263668--52263706	11	3.4	11	80	13	51	51	0	2	46	1.14
52263686--52263723	14	2.4	17	87	12	55	47	0	0	52	1.00
52279191--52279240	18	2.9	18	80	19	63	68	0	8	24	1.16
52286587--52286655	35	1.9	36	94	2	122	26	4	17	52	1.63
52287997--52288036	20	2.0	20	90	0	62	50	12	10	27	1.72
52287985--52288050	35	1.9	34	87	6	98	46	13	9	30	1.74
52294125--52294189	29	2.2	30	86	2	87	32	12	7	47	1.69
52294234--52294301	33	2.1	33	88	0	100	32	22	8	36	1.85
52297540--52297674	42	3.2	40	83	5	144	42	17	22	17	1.89
52297546--52297709	21	7.9	21	69	6	102	42	16	21	19	1.89
52300934--52300997	6	10.2	6	77	12	58	78	3	4	14	1.04
52300934--52301008	28	2.7	27	82	11	89	78	2	5	13	1.02
52301005--52301049	7	6.6	7	82	5	56	73	11	11	4	1.23
52300999--52301049	20	2.5	21	87	6	79	74	9	11	3	1.19
52305729--52305753	12	2.1	12	100	0	50	8	8	36	48	1.62
52305455--52305986	287	1.9	287	93	0	913	33	20	17	28	1.95
52308053--52308090	20	1.9	20	89	10	60	73	2	0	23	0.95
52309695--52309734	19	2.2	18	90	4	62	40	5	0	55	1.22
52314514--52314696	50	3.7	50	84	4	212	28	21	27	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52319400--52319425	5	5.2	5	100	0	52	19	19	19	42	1.90
52319604--52319839	46	5.6	44	75	19	229	35	14	21	28	1.93
52319645--52319794	36	3.9	36	78	16	165	36	15	19	28	1.92
52319604--52319838	82	2.9	82	90	1	366	35	14	21	28	1.93
52321508--52321541	11	3.1	11	91	0	59	70	0	0	29	0.87
52328675--52328716	21	2.0	21	85	0	57	35	2	26	35	1.70
52329090--52329216	64	2.0	64	82	0	155	23	20	22	33	1.97
52329309--52329355	24	2.0	24	83	4	60	21	19	14	44	1.86
52334363--52334388	11	2.4	11	100	0	52	92	0	7	0	0.39
52344243--52344292	26	1.9	26	87	0	73	52	0	14	34	1.42

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190